Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold167
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4199719
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 197959 characters in sequence are not A, C, G, or T
File 2 of 22
Found at i:179713 original size:5 final size:5
Alignment explanation
Indices: 179703--179745 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
179693 GCAAGAATCA
* *
179703 CAAAT CAAAT CAAAT -AATAT CAGAT AAAAT CAAAT CAAAT CAA
1 CAAAT CAAAT CAAAT CAA-AT CAAAT CAAAT CAAAT CAAAT CAA
179746 TTTAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 2 0.06
5 29 0.91
6 1 0.03
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.21
Consensus pattern (5 bp):
CAAAT
Found at i:183874 original size:22 final size:21
Alignment explanation
Indices: 183845--183885 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
183835 ATATAAAAAT
183845 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
183866 TATTATTATAATTAAATTTA
1 TATT-TTATAATTAAATTTA
183886 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:185656 original size:26 final size:28
Alignment explanation
Indices: 185627--185687 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
185617 CATTCATAAA
185627 AATTTTAAAATAAAA-TTTG-TCCTAAT
1 AATTTTAAAATAAAACTTTGTTCCTAAT
* ** *
185653 AATTATAATCTAAAACTTTGTTTCTAAT
1 AATTTTAAAATAAAACTTTGTTCCTAAT
185681 AATTTTA
1 AATTTTA
185688 GAATCATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 12 0.43
27 4 0.14
28 12 0.43
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (28 bp):
AATTTTAAAATAAAACTTTGTTCCTAAT
Found at i:185963 original size:2 final size:2
Alignment explanation
Indices: 185956--185983 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
185946 AATCCTTCAA
185956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
185984 TAGGTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:187675 original size:21 final size:21
Alignment explanation
Indices: 187636--187675 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
187626 ATAGTGCTTT
* *
187636 ATTTAATTTTTATTAAAATTG
1 ATTTAATTTTGAATAAAATTG
*
187657 ATTTAATTTTGAATCAAAT
1 ATTTAATTTTGAATAAAAT
187676 AATAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTTAATTTTGAATAAAATTG
Found at i:187822 original size:24 final size:27
Alignment explanation
Indices: 187769--187819 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
187759 AATTATTTTT
*
187769 TATTTTTATAATATAATTAAAAATAAA
1 TATTTTTATAATATAATAAAAAATAAA
187796 TATTTTTAT-AT-TAATAAAAAATAA
1 TATTTTTATAATATAATAAAAAATAA
187820 TATAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
26 2 0.09
27 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TATTTTTATAATATAATAAAAAATAAA
Found at i:188274 original size:4 final size:4
Alignment explanation
Indices: 188265--188290 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
188255 ATATAGAAAT
188265 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
188291 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:188294 original size:3 final size:3
Alignment explanation
Indices: 188286--188317 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
188276 ATTTATTTAT
188286 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
188318 TTTGCATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:190753 original size:2 final size:2
Alignment explanation
Indices: 190746--190783 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
190736 TTATCTATTG
190746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190784 TTAAAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:191670 original size:9 final size:9
Alignment explanation
Indices: 191656--191780 Score: 75
Period size: 9 Copynumber: 14.0 Consensus size: 9
191646 TTATTTTAAG
191656 ATATTATAT
1 ATATTATAT
191665 ATATTATAT
1 ATATTATAT
* *
191674 AAATTTTAAT
1 ATATTAT-AT
191684 ATATTA-AT
1 ATATTATAT
191692 A-ATCTATAT
1 ATAT-TATAT
*
191701 -TA-TATAA
1 ATATTATAT
* *
191708 ATTTTATAA
1 ATATTATAT
191717 ATATT-TAT
1 ATATTATAT
191725 ATATTCATAT
1 ATATT-ATAT
*
191735 -TATGTTTAT
1 ATAT-TATAT
191744 ATATTTATAT
1 ATA-TTATAT
191754 CATATT-TAT
1 -ATATTATAT
* *
191763 ATATTTTTT
1 ATATTATAT
191772 ATATTATAT
1 ATATTATAT
191781 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 26
0.70 0.10 0.20
Matches are distributed among these distances:
7 6 0.07
8 18 0.20
9 44 0.49
10 18 0.20
11 4 0.04
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (9 bp):
ATATTATAT
Found at i:191758 original size:11 final size:10
Alignment explanation
Indices: 191659--191782 Score: 71
Period size: 11 Copynumber: 12.2 Consensus size: 10
191649 TTTTAAGATA
191659 TTATATATA-
1 TTATATATAT
*
191668 TTATATAAAT
1 TTATATATAT
191678 TT-TAATATAT
1 TTAT-ATATAT
* *
191688 TAATAATCTAT
1 TTAT-ATATAT
*
191699 ATTATATAAAT
1 -TTATATATAT
*
191710 TT-TATAAAT
1 TTATATATAT
191719 ATT-TATATAT
1 -TTATATATAT
*
191729 TCATAT-TAT
1 TTATATATAT
191738 GTT-TATATAT
1 -TTATATATAT
191748 TTATATCATAT
1 TTATAT-ATAT
*
191759 TTATATATTTT
1 TTATATA-TAT
191770 TTATATTATAT
1 TTATA-TATAT
191781 TT
1 TT
191783 TAATTTTTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 22
0.73 0.10 0.18
Matches are distributed among these distances:
9 25 0.27
10 29 0.32
11 32 0.35
12 5 0.05
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (10 bp):
TTATATATAT
Found at i:191768 original size:19 final size:19
Alignment explanation
Indices: 191659--191768 Score: 80
Period size: 19 Copynumber: 5.5 Consensus size: 19
191649 TTTTAAGATA
*
191659 TTATATATATTATAT-AAATT
1 TTATATAT-TTATATCATA-T
*
191679 TTAATATATTAATAATCTATAT
1 TT-ATATATTTAT-ATC-ATAT
* *
191701 TATATAAATTT-TATAAATAT
1 T-TATATATTTATAT-CATAT
* * *
191721 TTATATATTCATATTATGT
1 TTATATATTTATATCATAT
191740 TTATATATTTATATCATAT
1 TTATATATTTATATCATAT
191759 TTATATATTT
1 TTATATATTT
191769 TTTATATTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
19 36 0.51
20 15 0.21
21 9 0.13
22 8 0.11
23 3 0.04
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (19 bp):
TTATATATTTATATCATAT
Found at i:191775 original size:22 final size:20
Alignment explanation
Indices: 191747--191793 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
191737 TGTTTATATA
191747 TTTATATCATATTTATATATTT
1 TTTATATCATATTT-TA-ATTT
*
191769 TTTATATTATATTTTAATTT
1 TTTATATCATATTTTAATTT
191789 TTTAT
1 TTTAT
191794 TATGTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
22 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATATCATATTTTAATTT
Found at i:192286 original size:8 final size:9
Alignment explanation
Indices: 192259--192293 Score: 54
Period size: 10 Copynumber: 3.9 Consensus size: 9
192249 TAATTAATAA
192259 TAATATTTT
1 TAATATTTT
192268 TATATATTTT
1 TA-ATATTTT
192278 TAATA-TTT
1 TAATATTTT
192286 TAATATTT
1 TAATATTT
192294 ATTTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
9 7 0.29
10 9 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAATATTTT
Found at i:196544 original size:14 final size:14
Alignment explanation
Indices: 196525--196551 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
196515 ACTGGTCTCT
196525 CCCCCCCCCTCCCC
1 CCCCCCCCCTCCCC
196539 CCCCCCCCCTCCC
1 CCCCCCCCCTCCC
196552 TTTTTTTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.93, G:0.00, T:0.07
Consensus pattern (14 bp):
CCCCCCCCCTCCCC
Found at i:198056 original size:25 final size:23
Alignment explanation
Indices: 198021--198076 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
198011 GAAAAAATTA
*
198021 TTTAAATAATAAAAAAATATTATTT
1 TTTAAAAAATAAAAAAATA-T-TTT
* *
198046 TTTAAAAAATATAAAATTATTTT
1 TTTAAAAAATAAAAAAATATTTT
198069 TTTAAAAA
1 TTTAAAAA
198077 TAATTTTACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 11 0.39
24 1 0.04
25 16 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAAAAAATAAAAAAATATTTT
Found at i:198261 original size:2 final size:2
Alignment explanation
Indices: 198254--198295 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
198244 CTTTTTAAGA
* *
198254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
198296 GTAACATGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:198721 original size:30 final size:30
Alignment explanation
Indices: 198632--198727 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
198622 AAAATCAACT
* * *
198632 ATTAATTTTTAATTTGTA-TTTAATAAATC
1 ATTAACTTTTAATTTGTACTTAAATAAGTC
* * ** *
198661 ATTAATCTTTTAGTTCGTACCAAAACAAGTC
1 ATTAA-CTTTTAATTTGTACTTAAATAAGTC
*
198692 ATTAACTTTTAATTTTTACTTAAATAAGTC
1 ATTAACTTTTAATTTGTACTTAAATAAGTC
198722 ATTAAC
1 ATTAAC
198728 AAAAATTAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
29 5 0.10
30 35 0.69
31 11 0.22
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (30 bp):
ATTAACTTTTAATTTGTACTTAAATAAGTC
Found at i:199638 original size:3 final size:3
Alignment explanation
Indices: 199630--199657 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
199620 TTGCTTACAG
199630 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
199658 TGACAGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:200375 original size:16 final size:16
Alignment explanation
Indices: 200324--200367 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
200314 TTTCGAGTTT
200324 AAGTTATTTTGATCTC
1 AAGTTATTTTGATCTC
200340 AAGTTATTTTGATCTC
1 AAGTTATTTTGATCTC
*
200356 AAGTTACTTTGA
1 AAGTTATTTTGA
200368 GTTCAAGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (16 bp):
AAGTTATTTTGATCTC
Found at i:200426 original size:16 final size:16
Alignment explanation
Indices: 200401--200431 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
200391 TTTTTTCAAG
200401 TTTGAATTATTTTAAA
1 TTTGAATTATTTTAAA
*
200417 TTTGAGTTATTTTAA
1 TTTGAATTATTTTAA
200432 TTTTAGGCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TTTGAATTATTTTAAA
Found at i:201149 original size:20 final size:19
Alignment explanation
Indices: 201113--201155 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
201103 TTAATTTTTT
201113 ATTTAAATTTATTTTTAAA
1 ATTTAAATTTATTTTTAAA
201132 ATTTAATATTT-TTATTTAAA
1 ATTTAA-ATTTATT-TTTAAA
201152 ATTT
1 ATTT
201156 TTCAAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTAAATTTATTTTTAAA
Found at i:201189 original size:18 final size:20
Alignment explanation
Indices: 201150--201191 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
201140 TTTTTATTTA
201150 AAATTTTTCAAATATCAAAT
1 AAATTTTTCAAATATCAAAT
*
201170 AAATTTTT-AAAT-TTAAAT
1 AAATTTTTCAAATATCAAAT
201188 AAAT
1 AAAT
201192 AACCTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTTTTCAAATATCAAAT
Found at i:202253 original size:18 final size:18
Alignment explanation
Indices: 202215--202277 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
202205 TAAATTTTTA
202215 AAAATATTA-AATAA-AATT
1 AAAATATTATAA-AATAA-T
202233 AAAATATTATAAAATAAT
1 AAAATATTATAAAATAAT
* *
202251 AAAAGATAAT-AAATAAT
1 AAAATATTATAAAATAAT
*
202268 TAAATATTAT
1 AAAATATTAT
202278 TTCATTAAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
17 14 0.37
18 20 0.53
19 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATATTATAAAATAAT
Found at i:202462 original size:21 final size:21
Alignment explanation
Indices: 202438--202493 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
202428 TATCATTGAT
*
202438 TTTAATCTTATTATTATAATA
1 TTTAATCTTATCATTATAATA
* *
202459 TTTAATTTTATCGTTATAATA
1 TTTAATCTTATCATTATAATA
** *
202480 ACTAATTTTATCAT
1 TTTAATCTTATCAT
202494 AATCATTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAATCTTATCATTATAATA
Found at i:203221 original size:2 final size:2
Alignment explanation
Indices: 203214--203247 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
203204 ACTAAATAAC
203214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
203248 GGTATTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:211942 original size:13 final size:13
Alignment explanation
Indices: 211924--211959 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
211914 TTTAGTTTTT
211924 TTTTTATTTGGTA
1 TTTTTATTTGGTA
*
211937 TTTTTATTTGTTA
1 TTTTTATTTGGTA
*
211950 TTATTATTTG
1 TTTTTATTTG
211960 ATTTGATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (13 bp):
TTTTTATTTGGTA
Found at i:212163 original size:21 final size:22
Alignment explanation
Indices: 212112--212164 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
212102 CACCTGACAG
*
212112 ATTT-AATTTAAATTAATTTTT
1 ATTTAAATTTAAAATAATTTTT
* *
212133 A-ATAATTTTAAAAT-ATTTTT
1 ATTTAAATTTAAAATAATTTTT
212153 ATTTAAATTTAA
1 ATTTAAATTTAA
212165 TTATAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTAAATTTAAAATAATTTTT
Found at i:213225 original size:2 final size:2
Alignment explanation
Indices: 213218--213250 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
213208 AAAATTTATT
*
213218 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
213251 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:214033 original size:15 final size:17
Alignment explanation
Indices: 214003--214044 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
213993 TAAAAATAAT
214003 TTATAAAATTATAAAGA
1 TTATAAAATTATAAAGA
214020 TTATAAAA-TA-AAAGA
1 TTATAAAATTATAAAGA
214035 TGT-TAAAATT
1 T-TATAAAATT
214045 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
16 4 0.17
17 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
TTATAAAATTATAAAGA
Found at i:219917 original size:18 final size:20
Alignment explanation
Indices: 219886--219926 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 20
219876 TTAAGGTATT
219886 ATATATTTATATAAATTT-TG
1 ATATATTTATAT-AATTTATG
219906 ATATA-TTA-ATAATTTATG
1 ATATATTTATATAATTTATG
219924 ATA
1 ATA
219927 AATAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.25
18 7 0.35
19 3 0.15
20 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
ATATATTTATATAATTTATG
Found at i:219988 original size:19 final size:18
Alignment explanation
Indices: 219961--219999 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
219951 TTATGTTGTG
*
219961 TTATTTTATATGTTTAATT
1 TTATGTTATAT-TTTAATT
*
219980 TTATGTTATGTTTTAATT
1 TTATGTTATATTTTAATT
219998 TT
1 TT
220000 TTTTCTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (18 bp):
TTATGTTATATTTTAATT
Found at i:226020 original size:2 final size:2
Alignment explanation
Indices: 226013--226056 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
226003 AAACATATTT
* *
226013 TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
226055 TA
1 TA
226057 GCCATGTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:228754 original size:19 final size:19
Alignment explanation
Indices: 228730--228766 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
228720 TCTTTGGCAA
**
228730 CAATGCTTTTGGTAGTAAG
1 CAATGCTTCCGGTAGTAAG
228749 CAATGCTTCCGGTAGTAA
1 CAATGCTTCCGGTAGTAA
228767 TGCACTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (19 bp):
CAATGCTTCCGGTAGTAAG
Found at i:229673 original size:19 final size:19
Alignment explanation
Indices: 229628--229675 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
229618 AAAATATTAT
*
229628 TATTTAAAATTTGATTTTT
1 TATTTAAAATTTGATTTTC
*
229647 TAGATTAAAATTT-ATTTTGC
1 TA-TTTAAAATTTGATTTT-C
229667 TATTTAAAA
1 TATTTAAAA
229676 AATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (19 bp):
TATTTAAAATTTGATTTTC
Found at i:229755 original size:37 final size:37
Alignment explanation
Indices: 229688--229758 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
229678 TTAAAATATT
* *
229688 TTAAAAATATTTTTTATATTATATATTAATAATTAAA
1 TTAAAAATATTATTTATATTATATAATAATAATTAAA
229725 TTAAAAA-ATTATTTATATTA-ATTAAATAATAATT
1 TTAAAAATATTATTTATATTATA-T-AATAATAATT
229759 CAAAACAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 1 0.03
36 13 0.43
37 16 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
TTAAAAATATTATTTATATTATATAATAATAATTAAA
Found at i:230121 original size:3 final size:3
Alignment explanation
Indices: 230113--230147 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
230103 TAGGTGGCAC
230113 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
230148 CTTTGTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:230373 original size:17 final size:17
Alignment explanation
Indices: 230353--230386 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
230343 ATCTTAAGTC
230353 GTGAGAAATTGAATTGA
1 GTGAGAAATTGAATTGA
230370 GTGAGAAATTGAATTGA
1 GTGAGAAATTGAATTGA
230387 ATTATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (17 bp):
GTGAGAAATTGAATTGA
Found at i:230682 original size:2 final size:2
Alignment explanation
Indices: 230675--230708 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
230665 TTTATATTTC
230675 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
230709 AAGGATTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:232424 original size:7 final size:7
Alignment explanation
Indices: 232411--232441 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
232401 TCGAATATGA
232411 AAAAAAT
1 AAAAAAT
*
232418 GAAAAAT
1 AAAAAAT
232425 AAAAAAT
1 AAAAAAT
232432 AAAAAAT
1 AAAAAAT
232439 AAA
1 AAA
232442 TGAACTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:232627 original size:52 final size:52
Alignment explanation
Indices: 232565--232683 Score: 238
Period size: 52 Copynumber: 2.3 Consensus size: 52
232555 TTTAAATAAT
232565 ATTTTGAGATAAAAATAGTCGAAAAGATTTTTGAAATTGAAGTTTCTTATTA
1 ATTTTGAGATAAAAATAGTCGAAAAGATTTTTGAAATTGAAGTTTCTTATTA
232617 ATTTTGAGATAAAAATAGTCGAAAAGATTTTTGAAATTGAAGTTTCTTATTA
1 ATTTTGAGATAAAAATAGTCGAAAAGATTTTTGAAATTGAAGTTTCTTATTA
232669 ATTTTGAGATAAAAA
1 ATTTTGAGATAAAAA
232684 ATGTGATTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (52 bp):
ATTTTGAGATAAAAATAGTCGAAAAGATTTTTGAAATTGAAGTTTCTTATTA
Found at i:232646 original size:26 final size:26
Alignment explanation
Indices: 232565--232647 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 26
232555 TTTAAATAAT
232565 ATTTTGAGATAAAAATAGTCGAAAAG
1 ATTTTGAGATAAAAATAGTCGAAAAG
* ** * * * **
232591 ATTTTTGAAATTGAAGT-TTCTTATTA-
1 A-TTTTGAGATAAAAATAGTC-GAAAAG
232617 ATTTTGAGATAAAAATAGTCGAAAAG
1 ATTTTGAGATAAAAATAGTCGAAAAG
232643 ATTTT
1 ATTTT
232648 TGAAATTGAA
Statistics
Matches: 37, Mismatches: 16, Indels: 8
0.61 0.26 0.13
Matches are distributed among these distances:
25 13 0.35
26 11 0.30
27 13 0.35
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.39
Consensus pattern (26 bp):
ATTTTGAGATAAAAATAGTCGAAAAG
Found at i:232672 original size:26 final size:26
Alignment explanation
Indices: 232591--232673 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 26
232581 AGTCGAAAAG
232591 ATTTTTGAAATTGAAGTTTCTTATTA
1 ATTTTTGAAATTGAAGTTTCTTATTA
* ** * * * **
232617 A-TTTTGAGATAAAAATAGTC-GAAAA
1 ATTTTTGAAATTGAAGT-TTCTTATTA
232642 GATTTTTGAAATTGAAGTTTCTTATTA
1 -ATTTTTGAAATTGAAGTTTCTTATTA
232669 ATTTT
1 ATTTT
232674 GAGATAAAAA
Statistics
Matches: 37, Mismatches: 16, Indels: 8
0.61 0.26 0.13
Matches are distributed among these distances:
25 13 0.35
26 11 0.30
27 13 0.35
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (26 bp):
ATTTTTGAAATTGAAGTTTCTTATTA
Found at i:233280 original size:22 final size:24
Alignment explanation
Indices: 233250--233307 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 24
233240 TATATATAGT
233250 ATATATAAAT-AAATCAACTA-AAA
1 ATATATAAATAAAATCAA-TATAAA
233273 ATAT-TAAATAAAATCAATATAAA
1 ATATATAAATAAAATCAATATAAA
233296 ATCATACTAAAT
1 AT-ATA-TAAAT
233308 TCACATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.23
23 16 0.53
24 2 0.07
26 5 0.17
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (24 bp):
ATATATAAATAAAATCAATATAAA
Found at i:233752 original size:2 final size:2
Alignment explanation
Indices: 233745--233782 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
233735 TTTATATCTT
233745 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
233783 GTACTATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:233913 original size:40 final size:40
Alignment explanation
Indices: 233853--233932 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
233843 CAAAAATAAA
* *
233853 GTACTTTAAATAATACACACTCAAGTCAAGTCTTACTTTT
1 GTACCTTAAATAATACACACTCAAGTCAAGCCTTACTTTT
* *
233893 GTACCTTAAATAATATACACTCAAGTTAAGCCTTACTTTT
1 GTACCTTAAATAATACACACTCAAGTCAAGCCTTACTTTT
233933 CATAGTAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (40 bp):
GTACCTTAAATAATACACACTCAAGTCAAGCCTTACTTTT
Found at i:238007 original size:2 final size:2
Alignment explanation
Indices: 238000--238037 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
237990 ATTTTATACT
238000 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
238038 AAGGATTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:239267 original size:12 final size:12
Alignment explanation
Indices: 239245--239295 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
239235 AACTGTGCCG
239245 TCAATTTTGAAAT
1 TCAA-TTTGAAAT
239258 TCAATTTGAAAT
1 TCAATTTGAAAT
*
239270 AGTAAATGTTGAAAT
1 --TCAAT-TTGAAAT
239285 TCAATTTGAAA
1 TCAATTTGAAA
239296 CAGTGAAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 14 0.42
13 8 0.24
14 4 0.12
15 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (12 bp):
TCAATTTGAAAT
Found at i:239307 original size:27 final size:27
Alignment explanation
Indices: 239251--239307 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
239241 GCCGTCAATT
* *
239251 TTGAAATTCAATTTGAAATAGTAAATG
1 TTGAAATTCAATTTGAAACAGTAAAGG
*
239278 TTGAAATTCAATTTGAAACAGTGAAGG
1 TTGAAATTCAATTTGAAACAGTAAAGG
239305 TTG
1 TTG
239308 CATAGTATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.35
Consensus pattern (27 bp):
TTGAAATTCAATTTGAAACAGTAAAGG
Found at i:239372 original size:9 final size:9
Alignment explanation
Indices: 239358--239383 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
239348 AGAAGGCTCA
239358 AGCAGAGAC
1 AGCAGAGAC
239367 AGCAGAGAC
1 AGCAGAGAC
239376 AGCAGAGA
1 AGCAGAGA
239384 TAGTAGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.35, T:0.00
Consensus pattern (9 bp):
AGCAGAGAC
Found at i:244027 original size:12 final size:12
Alignment explanation
Indices: 244005--244055 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
243995 AACTGTGCCG
244005 TCAATTTTGAAAT
1 TCAA-TTTGAAAT
244018 TCAATTTGAAAT
1 TCAATTTGAAAT
*
244030 AGTAAATGTTGAAAT
1 --TCAAT-TTGAAAT
244045 TCAATTTGAAA
1 TCAATTTGAAA
244056 CAGTGAAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 14 0.42
13 8 0.24
14 4 0.12
15 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (12 bp):
TCAATTTGAAAT
Found at i:244067 original size:27 final size:27
Alignment explanation
Indices: 244011--244067 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
244001 GCCGTCAATT
* *
244011 TTGAAATTCAATTTGAAATAGTAAATG
1 TTGAAATTCAATTTGAAACAGTAAAGG
*
244038 TTGAAATTCAATTTGAAACAGTGAAGG
1 TTGAAATTCAATTTGAAACAGTAAAGG
244065 TTG
1 TTG
244068 CATAGTACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.35
Consensus pattern (27 bp):
TTGAAATTCAATTTGAAACAGTAAAGG
Found at i:244132 original size:9 final size:9
Alignment explanation
Indices: 244118--244150 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
244108 AGAAGGCTCA
244118 AGCAGAGAC
1 AGCAGAGAC
244127 AGCAGAGAC
1 AGCAGAGAC
*
244136 AGCAGAGAT
1 AGCAGAGAC
244145 AGCAGA
1 AGCAGA
244151 AAGAGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.33, T:0.03
Consensus pattern (9 bp):
AGCAGAGAC
Found at i:245118 original size:2 final size:2
Alignment explanation
Indices: 245111--245153 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
245101 TTATTAAACT
245111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
245153 T
1 T
245154 GTTCTTCAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:246869 original size:2 final size:2
Alignment explanation
Indices: 246862--246911 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
246852 TCAGTCTGAT
246862 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
246904 TG TA TA TA
1 TA TA TA TA
246912 GGTGTGTGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:248637 original size:11 final size:11
Alignment explanation
Indices: 248610--248644 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
248600 CCAAACCAAT
248610 CCACCCACCCACA
1 CCACCC-CCC-CA
248623 CCACCCCCCCA
1 CCACCCCCCCA
248634 CCACCCCCCCA
1 CCACCCCCCCA
248645 AGAAAAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.59
12 3 0.14
13 6 0.27
ACGTcount: A:0.23, C:0.77, G:0.00, T:0.00
Consensus pattern (11 bp):
CCACCCCCCCA
Found at i:249656 original size:2 final size:2
Alignment explanation
Indices: 249645--249687 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
249635 ACATGCACAC
*
249645 AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
249687 A
1 A
249688 CCATCAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:250441 original size:2 final size:2
Alignment explanation
Indices: 250434--250473 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
250424 TAAAATATGT
*
250434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
250474 GTCAAATGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:250877 original size:89 final size:88
Alignment explanation
Indices: 250726--250902 Score: 336
Period size: 89 Copynumber: 2.0 Consensus size: 88
250716 TGCAAACAAA
250726 ATTGTCAACATAAGAAAGATTAATCCTTATGTATTAAAGGAAAACTTCACAAATGACAATTTTCA
1 ATTGTCAACATAAGAAAGATTAATCCTTATGTATTAAAGGAAAACTTCACAAATGACAATTTTCA
250791 TGTGAAATAAATCCAAGAAATTTT
66 TGTGAAATAAATCCAAG-AATTTT
250815 ATTGTCAACATAAGAAAGATTAATCCTTATGTATTAAAGGAAAACTTCACAAATGACAATTTTCA
1 ATTGTCAACATAAGAAAGATTAATCCTTATGTATTAAAGGAAAACTTCACAAATGACAATTTTCA
*
250880 TGTGAATTAAATCCAAGAATTTT
66 TGTGAAATAAATCCAAGAATTTT
250903 CACCTGAAAC
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 6 0.07
89 81 0.93
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (88 bp):
ATTGTCAACATAAGAAAGATTAATCCTTATGTATTAAAGGAAAACTTCACAAATGACAATTTTCA
TGTGAAATAAATCCAAGAATTTT
Found at i:256352 original size:2 final size:2
Alignment explanation
Indices: 256345--256374 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
256335 AATGTACATG
*
256345 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
256375 TTTCCTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:259857 original size:4 final size:4
Alignment explanation
Indices: 259850--259879 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
259840 TATTCTTTCT
259850 TTTA TTTA -TTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
259880 GAGTGATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:260062 original size:15 final size:18
Alignment explanation
Indices: 260042--260091 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
260032 AATTAAATAC
260042 ATAAAATT-TA-TT-TTA
1 ATAAAATTATATTTATTA
260057 ATAAAATTATATTTATTA
1 ATAAAATTATATTTATTA
*
260075 ATAAAATATAAATTTAT
1 ATAAAAT-TATATTTAT
260092 ATATTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 8 0.27
16 2 0.07
17 2 0.07
18 10 0.33
19 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAAAATTATATTTATTA
Found at i:261772 original size:20 final size:19
Alignment explanation
Indices: 261736--261783 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
261726 TAATAAATCG
*
261736 TGTATTTATATTATTATCA
1 TGTATTTATATTATTATAA
261755 TGTATTT-TATTAGGTTATAA
1 TGTATTTATATTA--TTATAA
261775 TCGTATTTA
1 T-GTATTTA
261784 AAATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 6 0.25
21 6 0.25
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.56
Consensus pattern (19 bp):
TGTATTTATATTATTATAA
Found at i:261842 original size:18 final size:19
Alignment explanation
Indices: 261821--261856 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
261811 TATTTAATAT
*
261821 AATAAT-ATTTTTTAAAAG
1 AATAATAATCTTTTAAAAG
261839 AATAATAATCTTTTAAAA
1 AATAATAATCTTTTAAAA
261857 ATGTGATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
AATAATAATCTTTTAAAAG
Found at i:262411 original size:20 final size:19
Alignment explanation
Indices: 262388--262435 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
262378 AATTTTATAA
*
262388 TAAATTTAATTAAAATTAAT
1 TAAATTTAAAT-AAATTAAT
* *
262408 TAAACTTAAATAAATTTAT
1 TAAATTTAAATAAATTAAT
262427 TAAAATTTA
1 T-AAATTTA
262436 TTTTTAAGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATTTAAATAAATTAAT
Found at i:262708 original size:17 final size:17
Alignment explanation
Indices: 262686--262719 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
262676 ATATGTTTAA
262686 CATCATCAAACGTATAT
1 CATCATCAAACGTATAT
262703 CATCATCAAACGTATAT
1 CATCATCAAACGTATAT
262720 ACAAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (17 bp):
CATCATCAAACGTATAT
Found at i:262961 original size:27 final size:30
Alignment explanation
Indices: 262931--262994 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
262921 ATGAATTAAT
262931 AATATATTAAA-A-T-TTATATAAAT-ATAA
1 AATATATTAAACAGTATTATA-AAATAATAA
*
262958 AATATCTTAAACAGTATTATAAAATAATAA
1 AATATATTAAACAGTATTATAAAATAATAA
262988 AATATAT
1 AATATAT
262995 GAATATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 10 0.32
28 1 0.03
29 5 0.16
30 15 0.48
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (30 bp):
AATATATTAAACAGTATTATAAAATAATAA
Found at i:263881 original size:32 final size:28
Alignment explanation
Indices: 263808--263886 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
263798 AATATTTAAA
263808 TAAAAAATATAATTAATTTAATAGTTTTT
1 TAAAAAATATAA-TAATTTAATAGTTTTT
*
263837 TAATAAAA-ATAATATTTTAAATATGATTTTT
1 TAA-AAAATATAATAATTT-AATA-G-TTTTT
263868 TAAAAAAT-T-ATAATTTAAT
1 TAAAAAATATAATAATTTAAT
263887 TATCTTAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
28 8 0.19
29 17 0.40
30 10 0.23
31 8 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (28 bp):
TAAAAAATATAATAATTTAATAGTTTTT
Found at i:264064 original size:28 final size:28
Alignment explanation
Indices: 264033--264089 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
264023 TATAATTATT
*
264033 TAATTAATTAA-ATATTTATTTTATAAAA
1 TAATTAATTAATAT-TTTATTTAATAAAA
* *
264061 TAATTTATTAGTATTTTATTTAATAAAA
1 TAATTAATTAATATTTTATTTAATAAAA
264089 T
1 T
264090 TTTAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TAATTAATTAATATTTTATTTAATAAAA
Found at i:264104 original size:24 final size:25
Alignment explanation
Indices: 264076--264130 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
264066 TATTAGTATT
264076 TTATTTAATAAAATTTTA-AAATAA
1 TTATTTAATAAAATTTTATAAATAA
**
264100 TTATTTAATAATTTTTTATTAAATAA
1 TTATTTAATAAAATTTTA-TAAATAA
264126 TTATT
1 TTATT
264131 CGAACCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 16 0.59
26 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTATTTAATAAAATTTTATAAATAA
Found at i:264258 original size:16 final size:16
Alignment explanation
Indices: 264237--264267 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
264227 TAATTTTTAA
264237 TTATTTTATTATAATT
1 TTATTTTATTATAATT
*
264253 TTATTTTATTTTAAT
1 TTATTTTATTATAAT
264268 AAATCAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTATTATAATT
Found at i:271678 original size:24 final size:24
Alignment explanation
Indices: 271648--271699 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
271638 CTACCAACAC
271648 CAGCAACATATGAAGTTTTGCCAT
1 CAGCAACATATGAAGTTTTGCCAT
271672 CAGCAACATATGAAGTTTTGCCAT
1 CAGCAACATATGAAGTTTTGCCAT
271696 CAGC
1 CAGC
271700 CACAATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (24 bp):
CAGCAACATATGAAGTTTTGCCAT
Found at i:278261 original size:9 final size:9
Alignment explanation
Indices: 278247--278278 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
278237 CATATCCGTG
278247 TTTTTTTTA
1 TTTTTTTTA
278256 TTTTTTTTTA
1 -TTTTTTTTA
278266 TTTTTTTTA
1 TTTTTTTTA
278275 TTTT
1 TTTT
278279 GTTGCTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:278262 original size:10 final size:10
Alignment explanation
Indices: 278247--278278 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
278237 CATATCCGTG
278247 TTTTTTTTAT
1 TTTTTTTTAT
278257 TTTTTTTTA-
1 TTTTTTTTAT
278266 TTTTTTTTAT
1 TTTTTTTTAT
278276 TTT
1 TTT
278279 GTTGCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:279671 original size:21 final size:22
Alignment explanation
Indices: 279608--279668 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
279598 TCGTCCATTG
* *
279608 TTTTT-TTTAATTAAATTAATTA
1 TTTTTATTTTATT-AATTAATAA
279630 TTTTTATTTTATTAATTAATAA
1 TTTTTATTTTATTAATTAATAA
279652 TTTTTA-TTTATT-ATTAA
1 TTTTTATTTTATTAATTAA
279669 ATATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.14
21 6 0.17
22 19 0.53
23 6 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTTATTTTATTAATTAATAA
Found at i:279691 original size:18 final size:18
Alignment explanation
Indices: 279668--279706 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
279658 TTTATTATTA
*
279668 AATATAAAAATATATTTT
1 AATATAAAAATAAATTTT
*
279686 AATATAAATATAAATTTT
1 AATATAAAAATAAATTTT
279704 AAT
1 AAT
279707 TATTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATAAAAATAAATTTT
Found at i:283756 original size:19 final size:19
Alignment explanation
Indices: 283691--283762 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 19
283681 TAACATATCA
283691 AAAT-TAATATAAATATA-
1 AAATATAATATAAATATAT
*
283708 AAATAT--TTTAAATAT-T
1 AAATATAATATAAATATAT
283724 --ATATAATA-AAATATAT
1 AAATATAATATAAATATAT
283740 AAATATAATATAAATATAT
1 AAATATAATATAAATATAT
283759 AAAT
1 AAAT
283763 TATTTCTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
14 4 0.09
15 6 0.13
16 10 0.22
17 4 0.09
18 9 0.20
19 12 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATATAATATAAATATAT
Found at i:283759 original size:58 final size:58
Alignment explanation
Indices: 283652--283762 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 58
283642 TTATTTATAT
* *
283652 ATATTTTAAAATTTATATAATAAAAATTATAACATATCAAAATTAATATAAATATAAA
1 ATATTTTAAAATTTATATAATAAAAATTATAACATATAAAAAATAATATAAATATAAA
283710 ATATTTT-AAATATTATATAAT-AAAATATATAA-ATATAATATAAAT-ATATAAAT
1 ATATTTTAAAAT-TTATATAATAAAAAT-TATAACATATAA-A-AAATAATATAAAT
283763 TATTTCTTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
57 14 0.30
58 30 0.64
59 3 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (58 bp):
ATATTTTAAAATTTATATAATAAAAATTATAACATATAAAAAATAATATAAATATAAA
Found at i:285597 original size:16 final size:18
Alignment explanation
Indices: 285578--285617 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
285568 TTATATATAG
285578 TTAATATATT-AA-TAAA
1 TTAATATATTAAATTAAA
285594 TTAAT-TATTAAATTAAA
1 TTAATATATTAAATTAAA
285611 -TAATATA
1 TTAATATA
285618 ATTATGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAATATATTAAATTAAA
Found at i:286323 original size:39 final size:39
Alignment explanation
Indices: 286268--286349 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 39
286258 GTTATTCAAA
* *
286268 ATTAAAAATT-ATTTAAATAATATTAT-ATATAAATATAAT
1 ATTAAAAATTAATTAAAAT-ATAATATAATATAAA-ATAAT
286307 ATTAAAAATTAATTAAAATATAATATAATATAAAATAAT
1 ATTAAAAATTAATTAAAATATAATATAATATAAAATAAT
286346 -TTAA
1 ATTAA
286350 TTATAATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
38 4 0.10
39 21 0.54
40 14 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (39 bp):
ATTAAAAATTAATTAAAATATAATATAATATAAAATAAT
Found at i:286350 original size:15 final size:16
Alignment explanation
Indices: 286299--286355 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
286289 ATTATATATA
*
286299 AATATAA-TATTAAA-
1 AATATAATTATAAAAT
286313 AAT-TAATTA-AAATAT
1 AATATAATTATAAA-AT
286328 AATATAA-TATAAAAT
1 AATATAATTATAAAAT
*
286343 AATTTAATTATAA
1 AATATAATTATAA
286356 TTTATGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 5 0.14
14 6 0.17
15 13 0.37
16 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATAATTATAAAAT
Found at i:286354 original size:26 final size:28
Alignment explanation
Indices: 286282--286356 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 28
286272 AAAATTATTT
286282 AAATAATATT-ATATATAAATATAATATTAA
1 AAATAAT-TTAAT-TAT-AATATAATATTAA
* *
286312 AAATTAATTAAAATATAATATAATA-T-A
1 AAA-TAATTTAATTATAATATAATATTAA
286339 AAATAATTTAATTATAAT
1 AAATAATTTAATTATAAT
286357 TTATGTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 13 0.33
27 4 0.10
28 1 0.03
29 9 0.23
30 7 0.18
31 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AAATAATTTAATTATAATATAATATTAA
Found at i:286471 original size:21 final size:20
Alignment explanation
Indices: 286447--286494 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
286437 ATTATCAATT
286447 TAAAATATGATATAAATATAA
1 TAAAATATGATAT-AATATAA
* *
286468 TAAAAAATTATATAATATAA
1 TAAAATATGATATAATATAA
286488 -AAAATAT
1 TAAAATAT
286495 TAATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.25
20 7 0.29
21 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAATATGATATAATATAA
Found at i:286482 original size:15 final size:15
Alignment explanation
Indices: 286462--286507 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
286452 TATGATATAA
286462 ATATAATAAAAAATT
1 ATATAATAAAAAATT
*
286477 ATATAATATAAAAAAT
1 ATATAATA-AAAAATT
*
286493 AT-TAATAAAATATT
1 ATATAATAAAAAATT
286507 A
1 A
286508 ATTTATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.22
15 13 0.48
16 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATAATAAAAAATT
Found at i:286504 original size:20 final size:20
Alignment explanation
Indices: 286392--286505 Score: 61
Period size: 20 Copynumber: 5.3 Consensus size: 20
286382 TATATAAAAT
286392 AAATATAATAAAAAATTTATA
1 AAATATAATAAAAAA-TTATA
* *
286413 ATTATTTAAATAATAAAATT-TA
1 A-AATAT-AATAA-AAAATTATA
* * *
286435 TAATTATCAATTTAAAATATGATA
1 -AAATAT-AA--TAAAAAATTATA
286459 TAAATATAATAAAAAATTATA
1 -AAATATAATAAAAAATTATA
* *
286480 TAATATAA-AAAATATTAATA
1 AAATATAATAAAAAATT-ATA
286500 AAATAT
1 AAATAT
286506 TAATTTATAA
Statistics
Matches: 71, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
19 7 0.10
20 15 0.21
21 11 0.15
22 9 0.13
23 14 0.20
24 15 0.21
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (20 bp):
AAATATAATAAAAAATTATA
Found at i:286509 original size:11 final size:10
Alignment explanation
Indices: 286447--286505 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
286437 ATTATCAATT
*
286447 TAAAATATGA
1 TAAAATATAA
286457 TATAAATATAA
1 TA-AAATATAA
* *
286468 TAAAAAATTA
1 TAAAATATAA
*
286478 TATAATATAA
1 TAAAATATAA
286488 -AAAATATTAA
1 TAAAATA-TAA
286498 TAAAATAT
1 TAAAATAT
286506 TAATTTATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 5 0.13
10 19 0.49
11 15 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
TAAAATATAA
Found at i:286517 original size:25 final size:25
Alignment explanation
Indices: 286447--286556 Score: 91
Period size: 25 Copynumber: 4.3 Consensus size: 25
286437 ATTATCAATT
*
286447 TAAAATATGA-TATAAATATAA-TAA
1 TAAAATATAATTATAAA-ATAATTAA
* *
286471 -AAAATTATATAATATAAAAAATATTAA
1 TAAAA-TATA-ATTATAAAATA-ATTAA
* *
286498 TAAAATATTAATTTATAAATTAATTTA
1 TAAAATA-TAA-TTATAAAATAATTAA
*
286525 TAAAATATAATTATAAAATAAATAA
1 TAAAATATAATTATAAAATAATTAA
286550 TAAAATA
1 TAAAATA
286557 AATATTAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
23 4 0.06
24 3 0.04
25 22 0.32
26 10 0.14
27 17 0.25
28 13 0.19
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (25 bp):
TAAAATATAATTATAAAATAATTAA
Found at i:286519 original size:12 final size:12
Alignment explanation
Indices: 286504--286541 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
286494 TTAATAAAAT
286504 ATTAATTTATAA
1 ATTAATTTATAA
286516 ATTAATTTATAAA
1 ATTAATTTAT-AA
286529 ATATAA-TTATAA
1 AT-TAATTTATAA
286541 A
1 A
286542 ATAAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 13 0.54
13 8 0.33
14 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTAATTTATAA
Found at i:286554 original size:12 final size:12
Alignment explanation
Indices: 286524--286565 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
286514 AAATTAATTT
*
286524 ATAAAATATAATT
1 ATAAAATA-AATA
286537 ATAAAATAAATA
1 ATAAAATAAATA
286549 ATAAAATAAATA
1 ATAAAATAAATA
*
286561 TTAAA
1 ATAAA
286566 GAAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAAAATAAATA
Found at i:286570 original size:23 final size:25
Alignment explanation
Indices: 286477--286571 Score: 72
Period size: 25 Copynumber: 3.8 Consensus size: 25
286467 ATAAAAAATT
286477 ATATAA-TATAAAA-AATATTAATAAA
1 ATATAATTATAAAAGAA-A-TAATAAA
** * *
286502 ATATTAATTTATAAATTAATTTATAAA
1 ATA-TAA-TTATAAAAGAAATAATAAA
*
286529 ATATAATTATAAAATAAATAATAAA
1 ATATAATTATAAAAGAAATAATAAA
*
286554 ATA-AA-TATTAAAGAAATA
1 ATATAATTATAAAAGAAATA
286572 TTTAAATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
23 11 0.19
24 2 0.03
25 22 0.38
26 6 0.10
27 9 0.16
28 6 0.10
29 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (25 bp):
ATATAATTATAAAAGAAATAATAAA
Found at i:286808 original size:11 final size:11
Alignment explanation
Indices: 286793--286835 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
286783 AAATAATTAA
286793 AAAATTAAATT
1 AAAATTAAATT
286804 AAAATTATAAATAT
1 AAAA-T-TAAAT-T
*
286818 AAAATTTAATT
1 AAAATTAAATT
286829 AAAATTA
1 AAAATTA
286836 TTTAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 11 0.41
12 5 0.19
13 6 0.22
14 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:286813 original size:25 final size:25
Alignment explanation
Indices: 286772--286836 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
286762 AATTAATATC
*
286772 AATTTAATTAAAA--ATAATTAAAA
1 AATTTAATTAAAATTATAAATAAAA
* *
286795 AATTAAATTAAAATTATAAATATAA
1 AATTTAATTAAAATTATAAATAAAA
286820 AATTTAATTAAAATTAT
1 AATTTAATTAAAATTAT
286837 TTAATTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 12 0.33
25 24 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATTTAATTAAAATTATAAATAAAA
Found at i:287577 original size:2 final size:2
Alignment explanation
Indices: 287570--287595 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
287560 GCATTTGATT
287570 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
287596 ATGTTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:288128 original size:15 final size:15
Alignment explanation
Indices: 288108--288137 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
288098 TTGGTGTAAT
288108 TTTTTAAAAAAAATA
1 TTTTTAAAAAAAATA
*
288123 TTTTTATAAAAAATA
1 TTTTTAAAAAAAATA
288138 AGAGTGGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTTTAAAAAAAATA
Found at i:288863 original size:20 final size:20
Alignment explanation
Indices: 288809--288863 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
288799 AAAAATGATG
* *
288809 ATTAAATAAAATAAATATAA
1 ATTATATAAAATAATTATAA
288829 ATTATATAAAA-AATTATAA
1 ATTATATAAAATAATTATAA
288848 A-TATATAAAATTAATT
1 ATTATATAAAA-TAATT
288864 TAATTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 9 0.29
19 8 0.26
20 14 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTATATAAAATAATTATAA
Found at i:289591 original size:23 final size:24
Alignment explanation
Indices: 289565--289614 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
289555 ATTAAATTTT
* * *
289565 ATATTATTATATAATATAAA-AAA
1 ATATGATTATAAAATAAAAATAAA
289588 ATATGATTATAAAATAAAAATAAA
1 ATATGATTATAAAATAAAAATAAA
289612 ATA
1 ATA
289615 AATACAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
ATATGATTATAAAATAAAAATAAA
Found at i:289972 original size:21 final size:21
Alignment explanation
Indices: 289956--290001 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
289946 AGTTTTATTA
289956 TATATTTGAAATTTTTTTAAG
1 TATATTTGAAATTTTTTTAAG
289977 TATATTTGAAATTTTTTTAAG
1 TATATTTGAAATTTTTTTAAG
289998 TATA
1 TATA
290002 AATATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (21 bp):
TATATTTGAAATTTTTTTAAG
Found at i:290772 original size:18 final size:19
Alignment explanation
Indices: 290749--290790 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
290739 GTGAGTTTAA
*
290749 AAAATAAAATTTTATAT-T
1 AAAATAAAATATTATATAT
*
290767 AAAATAATATATTATATAT
1 AAAATAAAATATTATATAT
290786 AAAAT
1 AAAAT
290791 TTTTGATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATAAAATATTATATAT
Found at i:290882 original size:19 final size:19
Alignment explanation
Indices: 290855--290891 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
290845 GACTTAAAAT
* *
290855 TAAATTAAAATTATAAGTA
1 TAAAATAAAATTAAAAGTA
290874 TAAAATAAAATTAAAAGT
1 TAAAATAAAATTAAAAGT
290892 GCTTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAATAAAATTAAAAGTA
Found at i:292152 original size:2 final size:2
Alignment explanation
Indices: 292145--292180 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
292135 AATTAGATAA
292145 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
292181 TTCTATATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:292497 original size:15 final size:15
Alignment explanation
Indices: 292477--292515 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
292467 TTGAAAAAAG
292477 TTTTAT-TTTGATGTA
1 TTTTATCTTT-ATGTA
292492 TTTTATCTTTATGTA
1 TTTTATCTTTATGTA
*
292507 ATTTATCTT
1 TTTTATCTT
292516 ATTTTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (15 bp):
TTTTATCTTTATGTA
Found at i:293510 original size:51 final size:51
Alignment explanation
Indices: 293432--293557 Score: 144
Period size: 51 Copynumber: 2.5 Consensus size: 51
293422 TTTGAGTTAC
** *
293432 AATTTTTATTAGCAATTTTTAAATATTATTCTCTCTGTTCTGTATTATTAT
1 AATTTTTATTAATAATCTTTAAATATTATTCTCTCTGTTCTGTATTATTAT
* * * *
293483 AATTTTTATTAATAATCTTTAATTATTATTTTCTCTGTTTTGTATTGTTAT
1 AATTTTTATTAATAATCTTTAAATATTATTCTCTCTGTTCTGTATTATTAT
* * * *
293534 ATAATGTTATTAATAGTTTTTAAA
1 A-ATTTTTATTAATAATCTTTAAA
293558 GACTATTTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 45 0.73
52 17 0.27
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (51 bp):
AATTTTTATTAATAATCTTTAAATATTATTCTCTCTGTTCTGTATTATTAT
Found at i:293565 original size:52 final size:51
Alignment explanation
Indices: 293445--293575 Score: 145
Period size: 51 Copynumber: 2.5 Consensus size: 51
293435 TTTTATTAGC
* * * *
293445 AATTTTTAAATATTATTCTCTCTGTTCTGTATTATTATAATTTTTATTAAT
1 AATTTTTAAATATTATTTTCTCTGTTTTGTATTATTATAAATGTTATTAAT
* * *
293496 AATCTTTAATTATTATTTTCTCTGTTTTGTATTGTTATATAATGTTATTAAT
1 AATTTTTAAATATTATTTTCTCTGTTTTGTATTATTATA-AATGTTATTAAT
* * * * *
293548 AGTTTTTAAAGACTATTTTATTTGTTTT
1 AATTTTTAAATATTATTTTCTCTGTTTT
293576 CATAAACTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
51 34 0.52
52 31 0.48
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (51 bp):
AATTTTTAAATATTATTTTCTCTGTTTTGTATTATTATAAATGTTATTAAT
Found at i:294211 original size:35 final size:36
Alignment explanation
Indices: 294172--294240 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
294162 CAAGGTTTGA
*
294172 ATTTTT-TTAAAATAATT-TTAATTATATTATATAAG
1 ATTTTTATTAAAATAATTATTAAATAT-TTATATAAG
* *
294207 ATTTTTATTTAAATATTTATTAAATATTTATATA
1 ATTTTTATTAAAATAATTATTAAATATTTATATA
294241 TTAAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 6 0.21
36 16 0.55
37 7 0.24
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (36 bp):
ATTTTTATTAAAATAATTATTAAATATTTATATAAG
Found at i:299748 original size:15 final size:15
Alignment explanation
Indices: 299713--299742 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
299703 TATTTTTGAA
299713 TAAAAAAATTATTAT
1 TAAAAAAATTATTAT
299728 TAAAAAAATT-TTAT
1 TAAAAAAATTATTAT
299742 T
1 T
299743 TCAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAAAAATTATTAT
Found at i:307410 original size:3 final size:3
Alignment explanation
Indices: 307402--307431 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
307392 ATAACATTTT
307402 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
307432 GTTAACAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:308207 original size:24 final size:25
Alignment explanation
Indices: 308146--308209 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
308136 ATTAATTACT
* ** *
308146 TTTTAATTTAAAAGATA-TAAATAC
1 TTTTAATTTAATATTTATTAAATAA
*
308170 TTTTAATTTTATATTTATTAAATAA
1 TTTTAATTTAATATTTATTAAATAA
308195 TTTT-ATTTAATATTT
1 TTTTAATTTAATATTT
308210 TAATAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTTAATTTAATATTTATTAAATAA
Found at i:308211 original size:25 final size:25
Alignment explanation
Indices: 308162--308217 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
308152 TTTAAAAGAT
* *
308162 ATAAATACTTTTAATTTTATATTTA
1 ATAAATAATTTTAATTTAATATTTA
*
308187 TTAAATAATTTT-ATTTAATATTTTA
1 ATAAATAATTTTAATTTAATA-TTTA
308212 ATAAAT
1 ATAAAT
308218 TTGTGTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
ATAAATAATTTTAATTTAATATTTA
Found at i:309506 original size:2 final size:2
Alignment explanation
Indices: 309501--309529 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
309491 TCTCAGTTTT
309501 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
309530 GAGTTTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:310061 original size:24 final size:22
Alignment explanation
Indices: 310025--310069 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
310015 AATAATTATG
*
310025 TTAATATTATATATTTATACTT
1 TTAATATTATATATGTATACTT
310047 TTAATATATATTATATGTATACT
1 TTAATAT-TA-TATATGTATACT
310070 AAAGAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATATTATATATGTATACTT
Found at i:311063 original size:14 final size:14
Alignment explanation
Indices: 311046--311073 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
311036 TAACTATAAA
311046 AATATAAAAATATT
1 AATATAAAAATATT
311060 AATATAAAAATATT
1 AATATAAAAATATT
311074 TTTTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:311065 original size:22 final size:22
Alignment explanation
Indices: 311031--311072 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
311021 TTTTTTACTT
311031 AAATATAACTATAAAAATATAA
1 AAATATAACTATAAAAATATAA
311053 AAATATTAA-TATAAAAATAT
1 AAATA-TAACTATAAAAATAT
311073 TTTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATAACTATAAAAATATAA
Found at i:312251 original size:2 final size:2
Alignment explanation
Indices: 312244--312275 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
312234 ATGACTTTTA
312244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
312276 TGGATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:313311 original size:19 final size:22
Alignment explanation
Indices: 313274--313316 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
313264 TATTTATATG
313274 ATTATTTTTAAATATAATAATT
1 ATTATTTTTAAATATAATAATT
*
313296 ATTATTTTTAAAAATAATAAT
1 ATTATTTTTAAATATAATAAT
313317 ACATTTATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATTTTTAAATATAATAATT
Found at i:313386 original size:26 final size:26
Alignment explanation
Indices: 313357--313411 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
313347 AAAATTATTA
313357 AATAATCACAT-AATAATTGATTAAAT
1 AATAAT-ACATAAATAATTGATTAAAT
* * *
313383 AATAATATATAAATAATTTATTAAGT
1 AATAATACATAAATAATTGATTAAAT
313409 AAT
1 AAT
313412 TATAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
AATAATACATAAATAATTGATTAAAT
Found at i:313419 original size:23 final size:25
Alignment explanation
Indices: 313341--313425 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 25
313331 TAAATTAAAA
* * *
313341 ATAAATAAAATTATTAAATAAT-CAC
1 ATAAAT-AATTTATTAAATAATATAT
*
313366 AT-AATAATTGATTAAATAATAATAT
1 ATAAATAATTTATTAAATAAT-ATAT
*
313391 ATAAATAATTTATTAAGTAAT-TAT
1 ATAAATAATTTATTAAATAATATAT
*
313415 A-AAATTATTTA
1 ATAAATAATTTA
313426 AAAACTTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
23 22 0.44
24 7 0.14
25 5 0.10
26 16 0.32
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAAATAATTTATTAAATAATATAT
Found at i:313985 original size:6 final size:6
Alignment explanation
Indices: 313974--314028 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
313964 ATTAAAAAAT
* * *
313974 TTTAAA TTTAAA TTTAAA TTT-AA TTT-AA TTTTAT TTTATCTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA
314022 TTTAAA T
1 TTTAAA T
314029 AAAAATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 10 0.24
6 27 0.66
8 4 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:314279 original size:9 final size:9
Alignment explanation
Indices: 314259--314301 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
314249 ATTAAATTGA
314259 TTAATTTAAT
1 TTAATTT-AT
314269 TTAATTTAT
1 TTAATTTAT
314278 TTAATTT-T
1 TTAATTTAT
* *
314286 TAAATTTAA
1 TTAATTTAT
314295 TTAATTT
1 TTAATTT
314302 TAAAAATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 7 0.24
9 15 0.52
10 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTAATTTAT
Found at i:314304 original size:10 final size:9
Alignment explanation
Indices: 314247--314301 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
314237 ATGATTTAAA
*
314247 TAATTAAAT
1 TAATTAATT
*
314256 TGATTAATT
1 TAATTAATT
314265 TAATTTAATT
1 TAA-TTAATT
*
314275 TATTTAATT
1 TAATTAATT
314284 T--TTAAATT
1 TAATT-AATT
314292 TAATTAATT
1 TAATTAATT
314301 T
1 T
314302 TAAAAATTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 2 0.05
8 5 0.13
9 21 0.55
10 10 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TAATTAATT
Found at i:315162 original size:50 final size:50
Alignment explanation
Indices: 315098--315387 Score: 255
Period size: 50 Copynumber: 5.7 Consensus size: 50
315088 TTTATCAATT
* * * * *
315098 TTTGATAATTGAGAGCGGTGATCGTAATTGTTGACTATTATTCACCAACC
1 TTTGACAATAGAGAGAGGTGATCATAATTGTTGACTATTCTTCACCAACC
* * *
315148 TTTGATAATAGAGAGAGGTGATCATAATTATTGACTATTCTTCACCAATC
1 TTTGACAATAGAGAGAGGTGATCATAATTGTTGACTATTCTTCACCAACC
* * *
315198 TTTGACAATAGAGAGAGGTG-GCTGTAATTGTTGACTATTCTTTACCAACC
1 TTTGACAATAGAGAGAGGTGATC-ATAATTGTTGACTATTCTTCACCAACC
* * ** * * **
315248 TTTGACAATAGAGAGAAGTGACCATAATTGTTGACTCTAAGCAACTTAAGCATGGC
1 TTTGACAATAGAGAGAGGTGATCATAATTGTTGA--CT-A--TTCTTCACCA-ACC
* * * *
315304 TAT-A-AATAGAGAGAGGTG-GCTGTAATTGTTGACTATTCTTTACCAACC
1 TTTGACAATAGAGAGAGGTGATC-ATAATTGTTGACTATTCTTCACCAACC
* *
315352 TTTGACAATAGAGAGAAGTGACCATAATTGTTGACT
1 TTTGACAATAGAGAGAGGTGATCATAATTGTTGACT
315388 CTAAGCAACT
Statistics
Matches: 193, Mismatches: 35, Indels: 24
0.77 0.14 0.10
Matches are distributed among these distances:
48 3 0.02
49 8 0.04
50 140 0.73
51 3 0.02
52 4 0.02
53 2 0.01
54 23 0.12
55 7 0.04
56 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (50 bp):
TTTGACAATAGAGAGAGGTGATCATAATTGTTGACTATTCTTCACCAACC
Done.